|
| Status |
Public on Aug 31, 2009 |
| Title |
4959_1 |
| Sample type |
RNA |
| |
|
| Source name |
Fibroblast_sample1
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Fibroblast_sample1
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA was extracted from cell pellet using Trizol (invitrogen)
|
| Label |
biotin
|
| Label protocol |
200ng of total RNA were labeled using the Illumina Total Prep RNA Amplification Kit (Ambion, cat#AMIL1791) according the manufacturer's instructions
|
| |
|
| Hybridization protocol |
750ng of labeled cRNA were hybridized on the Illumina HumanHT-12 V3.0 arrays according to Illumina's instructions.
|
| Scan protocol |
according to manufacturer
|
| Description |
Illumina HumanHT-12 V3.0
|
| Data processing |
Normalization and model-based expression measurements were performed with the Illumina analysis package (LUMI) available through the open-source Bioconductor project (http://www.bioconductor.org) within the statistical programming language R (http://cran.r-project.org/). A pair-wise comparison of neural crest cell from (H9 and C14-iPSC) versus FD-iPSC was performed using the Linear Models for Microarray Data package ( LIMMA) available through Bioconductor. Genes found to have an adjusted P-value < 0.05 and a fold change greater than two were considered significant.
|
| |
|
| Submission date |
Jul 10, 2009 |
| Last update date |
Aug 31, 2009 |
| Contact name |
Agnes Viale |
| E-mail(s) |
vialea@mskcc.org
|
| Phone |
212 639 3031
|
| Fax |
212 717 3053
|
| Organization name |
Memorial Sloan Kettering Cancer Center
|
| Department |
Molecular Biology
|
| Lab |
Genomics Core Laboratory
|
| Street address |
1275 York Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10021 |
| Country |
USA |
| |
|
| Platform ID |
GPL6947 |
| Series (1) |
| GSE17043 |
Molecular and functional characterization of FD-iPSC derived neural crest precursor cells |
|
